RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780935|ref|YP_003065348.1| rare lipoprotein A [Candidatus
Liberibacter asiaticus str. psy62]
(276 letters)
>3d30_A YOAJ, expansin like protein; peptidoglycan associated protein,
unknown function, MLTA, bacteria autolysis,
peptidoglycan-binding protein; 1.90A {Bacillus subtilis}
PDB: 2bh0_A
Length = 208
Score = 46.9 bits (111), Expect = 5e-06
Identities = 20/100 (20%), Positives = 33/100 (33%), Gaps = 11/100 (11%)
Query: 90 GMASWYGKAFHGRLTANGEVYGTEYITAAHPTLPLP---------SYVRVTNMENGISLV 140
G A++ G + G + ITA +P SY+ V
Sbjct: 9 GYATYTGSGYSGGAFLLDPIPSDMEITAINPADLNYGGVKAALAGSYLEVEG--PKGKTT 66
Query: 141 VRVNDRGPYHSNRLIDLSNAAAKILRVEERGVSKVHVEYL 180
V V D P + +DLS A + + + G + +
Sbjct: 67 VYVTDLYPEGARGALDLSPNAFRKIGNMKDGKINIKWRVV 106
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 39.9 bits (93), Expect = 7e-04
Identities = 52/353 (14%), Positives = 91/353 (25%), Gaps = 166/353 (47%)
Query: 23 SSCFFSSTYKDD-KL-----------EYFPE-----SMYG-------VTASDRIVSGKRV 58
+S F + + + +L +YF E Y +++ + R
Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRT 201
Query: 59 PRGGGRYFLGKPYQIMGRWY-----VP-RQYTAYAAV-----G---MASWY------GK- 97
+ F + I+ W P + Y + G +A + G
Sbjct: 202 TLDAEKVF-TQGLNIL-EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
Query: 98 --AFHGRLT-ANGEVYGTEYITAA-----------------------------H---PTL 122
L A G G +TA + P
Sbjct: 260 PGELRSYLKGATGHSQGL--VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 123 PLPSYVRVTNMENGIS-----LVVRVNDRG-PYHS-NRLIDLSNAAAKILRVEERGVSKV 175
LP + ++EN L + ++ +N L ++ V
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSI----SNLTQEQVQDYVNKTN---SHLPAGKQ----V 366
Query: 176 HVEYLGMALLNGMDQEYLRSTVMVNSATVLPLGCQYREEIVVI-PYL-LTRSRTVHLNNC 233
+ +L+NG +VV P L LN
Sbjct: 367 EI-----SLVNGAKN------------------------LVVSGPPQSL-----YGLN-- 390
Query: 234 DDDSLQKQREISLRERKKS-----NLIPLPNGYSPPRKMGKI-----PIPSRF 276
++LR+ K + IP +S RK+ K P+ S F
Sbjct: 391 ----------LTLRKAKAPSGLDQSRIP----FS-ERKL-KFSNRFLPVASPF 427
Score = 33.8 bits (77), Expect = 0.041
Identities = 13/79 (16%), Positives = 27/79 (34%), Gaps = 27/79 (34%)
Query: 148 PYHSNRLIDLSNAAAKIL-RVEERGVSKVHVEYLGMALL---NGMDQEYLRS-------- 195
P+HS+ L+ A+ I + + V + + + + + +G D LR
Sbjct: 426 PFHSHLLVP---ASDLINKDLVKNNV-SFNAKDIQIPVYDTFDGSD---LRVLSGSISER 478
Query: 196 ------TVMVN--SATVLP 206
+ V + T
Sbjct: 479 IVDCIIRLPVKWETTTQFK 497
Score = 33.8 bits (77), Expect = 0.048
Identities = 51/304 (16%), Positives = 80/304 (26%), Gaps = 130/304 (42%)
Query: 12 GSVVCVVVLGMSSCFFSSTYKDDKLEYFPESMYGVTASDRIVS---------G---KRV- 58
GS+ V+++ +S F +S ++ + PE G A D + G V
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE 73
Query: 59 PRGGGRY--------------FLG--------------------KPYQIMGRWYVPRQYT 84
P G++ +L K +++ + Y T
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI-KNY----IT 128
Query: 85 AYAAVG--MASWYGKAF-------HGRLTA------NGEVYGTE----YITAAHPTLPLP 125
A A + +L A N + Y E Y T
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT-------YH 181
Query: 126 SYVRVTNMENGISLVVRVNDRGPYHSNRLIDLSNAAAKILRVEERGVSKVHVEYLG-MAL 184
V L+ + L +L KV + L +
Sbjct: 182 VLVG--------DLIKFS-------AETLSELI--------RTTLDAEKVFTQGLNILEW 218
Query: 185 LNGM----DQEYLRSTVMVNSATV-LPL-G----CQYREEIVVIPYL-LT----RSR--- 226
L D++YL S + PL G Y +V L T RS
Sbjct: 219 LENPSNTPDKDYLL------SIPISCPLIGVIQLAHY---VVTAKLLGFTPGELRSYLKG 269
Query: 227 -TVH 229
T H
Sbjct: 270 ATGH 273
>2eab_A Alpha-fucosidase; glycoside hydrolase; 1.12A {Bifidobacterium
bifidum} PDB: 2eac_A* 2ead_A* 2eae_A*
Length = 899
Score = 33.3 bits (75), Expect = 0.068
Identities = 17/122 (13%), Positives = 32/122 (26%), Gaps = 9/122 (7%)
Query: 43 MYGVTASDRIV-------SGK--RVPRGGGRYFLGKPYQIMGRWYVPRQYTAYAAVGMAS 93
++G + +R+ +G G K + +Q A
Sbjct: 63 VWGEVSRERVTFNEETLWTGGPGSSTSYNGGNNETKGQNGATLRALNKQLANGAETVNPG 122
Query: 94 WYGKAFHGRLTANGEVYGTEYITAAHPTLPLPSYVRVTNMENGISLVVRVNDRGPYHSNR 153
+ N +G Y+ + Y R N+ G + V +D Y
Sbjct: 123 NLTGGENAAEQGNYLNWGDIYLDYGFNDTTVTEYRRDLNLSKGKADVTFKHDGVTYTREY 182
Query: 154 LI 155
Sbjct: 183 FA 184
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.8 bits (66), Expect = 0.67
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 234 DDDSLQKQREISLRERKKSNLI-P-LPNGYSPPRK 266
DD ++ + E S+ E LI P L NGY+P +K
Sbjct: 886 DDKDVKAKYETSILEHSGIRLIEPELFNGYNPEKK 920
>2rdy_A BH0842 protein; PSI-II, structural genomics, protein structure
initiative, NEW YORK SGX research center for structural
genomics; 2.03A {Bacillus halodurans c-125}
Length = 803
Score = 28.6 bits (63), Expect = 1.8
Identities = 10/49 (20%), Positives = 15/49 (30%)
Query: 111 GTEYITAAHPTLPLPSYVRVTNMENGISLVVRVNDRGPYHSNRLIDLSN 159
G I H + P Y R ++ GI V Y + +
Sbjct: 96 GDLNIFMDHGQVVAPHYHRELDLSTGIVTVTYTIGGVQYTRELFVTYPD 144
>3iii_A COCE/NOND family hydrolase; structural genomics, center for
structural genomics of infectious diseases, csgid; HET:
MSE PLM; 1.95A {Staphylococcus aureus subsp} PDB:
3ib3_A*
Length = 560
Score = 27.7 bits (60), Expect = 3.0
Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 1/85 (1%)
Query: 72 QIMGRWYVPRQYTAYAAVGMASWYGKAFHGRLTANGEVYGTEYITAAHPTLPLPSYVRVT 131
++ + P + + V A YGK ++T G ++ T P S
Sbjct: 53 KLYINIFRPNKDGKFPVVMSADTYGKDNKPKITNMGALWPTLGTIPTSSFTPEESPDPGF 112
Query: 132 NMENGISLVVRVNDRGPYHSNRLID 156
+ N +VV+V RG S ++
Sbjct: 113 WVPNDY-VVVKVALRGSDKSKGVLS 136
>3hiq_A Vacuolar saporin; ribosome inactivating proteins, RIPS, hydrolase,
plant defense, protein synthesis inhibitor, toxin; 2.19A
{Saponaria officinalis}
Length = 345
Score = 26.6 bits (58), Expect = 5.6
Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 2/46 (4%)
Query: 102 RLTANGEVYGTEYITAAHPTLPLPSYVRV--TNMENGISLVVRVND 145
+ YG + + P ++RV +SL V+ ++
Sbjct: 112 DIKDPNLHYGGTNLPVIKRPVGPPKFLRVNLKASTGTVSLAVQRSN 157
>1m06_G G protein, GPG, major spike protein; bacteriophage, virion; HET:
3DR; 3.50A {Enterobacteria phage ALPHA3} SCOP: b.121.5.1
PDB: 1m0f_G 1rb8_G*
Length = 187
Score = 26.8 bits (59), Expect = 6.1
Identities = 14/52 (26%), Positives = 21/52 (40%)
Query: 104 TANGEVYGTEYITAAHPTLPLPSYVRVTNMENGISLVVRVNDRGPYHSNRLI 155
T N V ITA + L + + V+ +G +V D P N +I
Sbjct: 30 TGNIPVINGGSITAERAVVNLYANMNVSTSSDGSFIVAMKVDTSPTDPNCVI 81
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.321 0.137 0.415
Gapped
Lambda K H
0.267 0.0425 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,496,708
Number of extensions: 115626
Number of successful extensions: 263
Number of sequences better than 10.0: 1
Number of HSP's gapped: 261
Number of HSP's successfully gapped: 11
Length of query: 276
Length of database: 5,693,230
Length adjustment: 91
Effective length of query: 185
Effective length of database: 3,487,026
Effective search space: 645099810
Effective search space used: 645099810
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.1 bits)